introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

7 rows where transcript_id = 4157796

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Suggested facets: dinucleotide_pair, score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
21481584 GT-AG 0 1.000000099473604e-05 508 rna-XM_039022304.1 4157796 2 16917908 16918415 Benincasa hispida 102211 CAG|GTTCTTCATT...TTTTGCTTATAT/ATTTTGCTTATA...TTCAG|GAC 0 1 43.328
21481585 GT-AG 0 1.830750562136494e-05 116 rna-XM_039022304.1 4157796 3 16917570 16917685 Benincasa hispida 102211 ACG|GTTTGTATTT...CTATCTTTTCCA/GTATCACTGACT...CGTAG|GGT 0 1 49.003
21481586 GC-AG 0 1.000000099473604e-05 515 rna-XM_039022304.1 4157796 4 16916986 16917500 Benincasa hispida 102211 GAG|GCAAGTTTCA...CATGTTTTAACT/CATGTTTTAACT...TTCAG|ATA 0 1 50.767
21481587 GT-AG 0 1.000000099473604e-05 97 rna-XM_039022304.1 4157796 5 16916619 16916715 Benincasa hispida 102211 ACG|GTGAGTTTCA...TTTTCCTTTCCA/CATGAGTTAAAA...TTCAG|TGC 0 1 57.669
21481588 GT-AG 0 0.1212055886894721 417 rna-XM_039022304.1 4157796 6 16915851 16916267 Benincasa hispida 102211 CAG|GTAACCTTAA...TTTTCCTTTTTC/ATTTTTTCTATT...AACAG|TAT 0 1 66.641
21481589 GT-AG 0 1.2149722405489556e-05 170 rna-XM_039022304.1 4157796 7 16915403 16915572 Benincasa hispida 102211 AAG|GTAAGCCTTT...ATCTATTTATTT/ATTTATTTCATT...GCCAG|AGT 2 1 73.747
21490881 GT-AG 0 1.000000099473604e-05 1290 rna-XM_039022304.1 4157796 1 16919673 16920962 Benincasa hispida 102211 TTG|GTAAGAATTG...CTTTTTTTAAAT/CTTTTTTTAAAT...TACAG|TTT   0 11.426

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);